Functional Genomics

Functional genomics in the human and mammalian genomes

The central interest of my lab is to decipher the gene regulatory networks encoded in the human genome. Towards that end, we have been deploying two functional sequencing techniques, DNase-seq (and more recently ATAC-seq) and ChIA-PET to identify respectively open chromatin associated with regulatory regions and long-range enhancer-promoter interactions. We also use comparative analyses in mouse, dog and horse cell lines to identify conserved as well as primate-specific interactions.

Our lab is also a funded member of the National Human Genome Research Institute (NHGRI) ENCyclopedia Of Dna Elements (ENCODE) Consortium, which is a large-scale NIH project to annotate the human genome with ancillary efforts to annotate the mouse. While our effort within ENCODE are primarily computational, we are also measuring microRNA expression levels in 50 human and mouse cell types over the next two years, which should also result in additional publications.